January 11, 2009
Pseudomonas database enlarged. 10 more species are now identifiable with ABIS: Comamonas testosteroni,
Sphingomonas paucimobilis, Pseudomonas oryzihabitans, Chryseomonas luteola, Stenotrophomonas maltophilia,
Pseudomonas fulva, Pseudomonas corrugata / P. mediterranea, Pseudomonas costantinii, Pseudomonas anguilliseptica,
August 28, 2008
After the Enterobacteriaceae, Pseudomonas & Staphylococcus categories a new category, Genus Bacillus (together with
some species from genera Paenibacillus, Brevibacillus & Geobacillus), is now available (in beta).
January 27, 2009
Beta version of Streptococcus database is now available for public use.
September 6, 2007
"ABIS 6 online" official launch with Enterobacteriaceae database.
October 19, 2007
Pseudomonas identification available.
February 24, 2008
Staphylococcus database released.
April 16, 2009
A hyperlink-video overlapping error encountered by Mozilla-Firefox users was fixed.
B. cereus, B. thuringiensis & B.mycoides are now treated as separate entities.
B. globisporus changed to Sporosarcina globispora,
B. pasteurii changed to Sporosarcina pasteurii,
B. psychrophilus changed to Sporosarcina psychrophila,
B. aneurinolyticus changed to Aneurinibacillus aneurinilyticus,
B. pantothenicus changed to Virgibacillus pantothenicus,
Paenibacillus pulvifaciens changed to P. larvae subsp. pulvifaciens & consequently P. larvae changed to P. larvae subsp.
7other Bacillus species moved to genus Paenibacillus,
2 Bacillus species moved to genus Brevibacillus,
B. chitinosporus & B. rarerepertus were eliminated from database,
Bacillus cirroflagelosus was included in database.
Biochemical tests updated for several Bacillus species.
Beta testing is over; Bacillus identification is running at full capacity.
Gelatin hydrolysis & 2-Ketogluconate utilization test corrected for C. luteola
Stentrophomonas maltophilia corrected to Stenotrophomonas maltophilia
"Growth at 15 ºC " character of Staphylococcus schleiferi subsp. coagulans & Staphylococcus schleiferi subsp. schleiferi
was set to "negative" (admin decision).
June 1, 2009
A new category "Family Pasteurellaceae" including genera Pasteurella, Actinobacillus, Haemophilus and some species
from Gallibacterium is now available (beta version).
September 08, 2009
GENERAL FIXES: identification engine improvement
1. Identification formula in "Normal mode" was changed, id% beeing now 3 to 7% higher. "Forced mode" formula was not
modified. Results before June 1st may have minor variations.
2. Taxons below 75% probability are no more listed, returning now "Taxon not found" message. Change was made in order
to avoid confusions when user is trying to identify a taxon that is not included in database.
Accuracy results corrected.
Streptococcus hansenii changed to Blautia hansenii.
S. alactolyticus and S. intestinalis are synonyms but are still treated as individual species.
S. equinus & S. bovis are synonyms but are still treated as individual species.
S shiloi was included in S. iniae as they are considered synonyms.
S.difficilis was included in S. agalactiae as they are considered synonyms
Alpha hemolysis on sheep blood agar of Streptococcus iniae (S. shiloi) was set to 'negative' (admin decision)
S. milleri, S. constellatus & S. intermedius are now included in S. anginosus
S. waius & S. macedonicus were changed to S. gallolyticus subsp. macedonicus
S infantarius subspecies infantarius & coli are presented as a single taxon: S. infantarius
S. mitis splitted into biotype 1 & biotype 2
S. mitior included in S. mitis biotype 1 due to S. mitior invalid name and a very close biochemical resemblance with S. mitis
biotype 1 (admin decision)
S. cricetus changed to S. criceti (Trüper and De’ Clari 1998)
New species added: S. minor, S. marimammalium,S. infantis / peroris, S. infantarius, S. hyovaginalis, S. halichoeri, S.
gallinaceus, S. equi subsp. ruminatorum, S. gallolyticus (S. caprinus).
Corrected a wrong displaying of rhamnose expected test in Biochemical details section.
Salmonella choleraesuis species changed to Salmonella enterica
October 27, 2009
Genera Pasteurella & Enterobacteriaceae suffered minor modifications:
Pasteurella species A and Pasteurella species B were included in ABIS database.
P. anatis moved into genus Gallibacterium (Gallibacterium anatis)
Pasteurella volantium, P. avium, P. gallinarum & Haemophilus paragallinarum moved into Genus Avibacterium
(Avibacterium avium, A. gallinarum, A. paragallinarum, A. volantium)
"Edwardiella hoshinae" corrected to Edwardsiella hoshinae.
January 12, 2010
New members added: Actinobacillus arthritidis.
Pasteurella granulomatis changed to Mannheimia granulomatis.
Pasteurella haemolytica biogroup 1 changed to Mannheimia haemolytica.
Pasteurella haemolytica biovar T changed to Pasteurella trehalosi.
Pasteurella haemolytica biogroup 3 & 5 changed to Mannheimia glucosida.
Mannheimia (Pasteurella) haemolytica bigroup 6 changed to Mannheimia varigena.
Actinobacillus actinomycetemcomitans changed to Aggregatibacter actinomycetemcomitans.
New members added: Streptococcus plurextorum, Streptococcus pluranimalium, Streptococcus phocae, Streptococcus
parasanguinis, Streptococcus ovis, Streptococcus orisuis, Streptococcus orisratti, Streptococcus australis & Streptococcus
March 22, 2010
Pasteurellaceae & Streptococcus databases updated.
New members added to Pasteurellaceae category: Actinobacillus porcinus, Actinobacillus minor, Actinobacillus indolicus,
New members added to Streptococcus category: Streptococcus thoraltensis, Streptococcus urinalis, Gemella bergeri,
Gemella cuniculi, Gemella haemolysans, Gemella palaticanis, Gemella sanguinis.
S. rattus changed to S. ratti (Trüper and De’ Clari 1997)
S. thermophilus changed to S. salivarius subsp. thermophilus and S. salivarius changed to S. salivarius subsp. salivarius.
June 03, 2010
Pasteurellaceae database updated.
New members added: Actinobacillus succinogenes Guettler, Rumler and Jain 1999, Actinobacillus scotiae Foster, Ross,
Patterson, Hutson and Collins 1998, Haemophilus aegyptius (Trevisan 1889) Pittman and Davis 1950, Haemophilus felis
Inzana et al. 1999,
Pasteurella ureae changed to Actinobacillus ureae Mutters et al. 1986,
Aggregatibacter aphrophilus now includes Haemophilus aphrophilus & H. paraphrophilus
August 30, 2010
Pasteurellaceae & Pseudomonas databases updated.
Haemophilus segnis changed to Aggregatibacter segnis, Nørskov-Lauritsen and Kilian 2006.
Pseudomonas pickettii changed to Ralstonia pickettii Yabuuchi et al. 1996;
Pseudomonas solanacearum changed to Ralstonia solanacearum (Smith 1896) Yabuuchi et al. 1996;
Pseudomonas pseudoalcaligenes changed to Pseudomonas oleovorans Lee and Chandler 1941 emend. Saha et al. 2010;
Pseudomonas diminuta changed to Brevundimonas diminuta (Leifson and Hugh 1954) Segers et al. 1994.
General fix: no more duplicate emails for some newsletter subscribers.
December 05, 2010
We are proud to announce the long-awaited release of ABIS 7 online. Since the ABIS 6 is history, you should know what is
new in ABIS 7:
1 Vibrionaceae family including Vibrio, Aliivibrio, Listonella & Grimontia genera (35 identifiable species out of 42) is now
available for public use. For the species list visit the Encyclopedia section.
2 Data-entering pannels for Pseudomonas and Enterobacteriaceae databases was redesigned for an easier usage.
3 Pseudomonas database was updated:
a) 13 identification morphobiochemical characters added: urea hydrolysis, esculin hydrolysis, ONPG (beta-galactosidase),
utilization as carbon source of citrate, L-arabinose, mannose, mannitol, sorbitol, sucrose, xylose & fructose, growth at 4 ºC,
b) 24 more Pseudomonas & Pseudomonas-like species added:
Pseudomonas migulae, Pseudomonas lurida, Pseudomonas lundensis, Pseudomonas libanensis, Pseudomonas indica,
Burkholderia glumae, Pseudomonas grimontii, Pseudomonas graminis, Pseudomonas gessardii, Burkholderia
andropogonis, Pseudomonas peli, Pseudomonas borbori, Pseudomonas asplenii, Pseudomonas agarici, Pseudomonas
meridiana, Pseudomonas cremoricolorata, Pseudomonas frederiksbergensis, Pseudomonas extremorientalis,
Pseudomonas citronellolis, Pseudomonas brassicacearum, Pseudomonas thivervalensis, Pseudomonas argentinensis,
c) Pseudomonas saccharophila Doudoroff 1940 changed to Pelomonas saccharophila Xie and Yokota 2005.
February 08, 2011
· Vibrio damsela changed to Photobacterium damselae
· Pasteurella piscicida changed to Photobacterium damselae subsp.piscicida, consequently Photobacterium damselae
changed to Photobacterium damselae subsp. damselae.
New entries in ABIS databases:
Enterobacteriacaeae: Plesiomonas shigelloides.
Vibrionaceae: Photobacterium leiognathi, Photobacterium angustum, Photobacterium phosphoreum, Vibrio navarrensis,
Vibrio scophthalmi, Vibrio splendidus I, Vibrio splendidus II, Vibrio tapetis, Vibrio tubiashii.
Pseudomonas & Pseudomonas-like: Burkholderia plantarii, Burkholderia graminis, Pseudomonas fuscovaginae, P.
koreensis, P. jinjuensis, P. lini, P. lutea, P. marincola, P. moraviensis, P. mosselii, P. nitroreducens, P. panacis, P.
pachastrellae, P. proteolytica,
P. pohangensis, P. pertucinogena, P. rhizosphaerae, P. simiae, P. taetrolens.
March 15, 2011
New species included in ABIS databases:
Family Vibrionaceae: Vibrio diabolicus, Vibrio halioticoli, Salinivibrio costicola, Photobacterium lutimaris, Photobacterium
lipolyticum & Aliivibrio wodanis.
Pseudomonas & Pseudomonas-like: Pseudomonas alcaliphila, P. congelans, P. duriflava, P. flavescens, P. guineae, P.
japonica, P. otitidis, P. panipatentis, P. poae, P. psychrotolerans, P. rhodesiae, P. segetis, P. straminea, P. trivialis, P.
tuomuerensis, P. umsongensis, P. veronii, P. vranovensis, P. xanthomarina, P. xiamenensis & Ralstonia syzygii.
April 14, 2011
New species included in ABIS databases:
Vibrionaceae database: Enterovibrio norvegicus.
Streoptococcus database: S gallolyticus subsp. macedonicus, S gallolyticus subsp. pasteurianus & 32 species from genus
Enterococcus (for species list see ABIS encyclopedia).
Streptococcus intestinalis & Streptococcus alactolyticus are considered synonyms (S. intestinalis was removed).
S. bovis & S. equinus may be considered synonyms (they are still treated as separate entities by ABIS online)
Removed tests: Growth at pH 9.6, Growth with 40% bile, Growth with 0.25% optochin & acid production from Salicin.
Added tests: acid production from Amygdalin, Arabinose, Arbutin, Fructose, Glucose, Mannose, Rhamnose, Sucrose &
- graphics were optimized for faster loading,
- the software is now suggesting the required tests to differentiate the first two identified species, if the id% is smaller than
1% and if there are available tests.
July 17, 2011
A new section based on molecular 16S rRNA sequence analysis is now available. For details and technical info see ‘Help’
H.agni & H. somnus may be synonyms of Histophilus somnis (formerly Histophilus ovis). De Ley et al., (1990) suggested that
H. agni & H. somnus be transferred to genus Histophilus, Histophilus ovis being a senior synonym for H. agni. However,
none of these names are valid, and no types have been designated.
Pasteurella langaa changed to P. langaaensis (corrected by Trüper and De' Clari 1998).
Pasteurella trehalosi changed to Biberstenia trehalosi.
New species included in ABIS databases:
Phocoenobacter uteri, Volucribacter amazonae, Volucribacter psittacicida;
Streptococcus caballi, Streptococcus castoreus, Streptococcus didelphis, Streptococcus entericus, Streptococcus henryi,
Streptococcus ictaluri, Streptococcus lutetiensis, Streptococcus massiliensis, Streptococcus merionis;
Vibrio neptunius, Vibrio brasiliensis, Vibrio xuii, Vibrio crassostreae, Vibrio lentus, Vibrio gallicus, Salinivibrio proteolyticus.
A scripting error that was causing wrong buttons’ placement in ‘Results’ page, triggered by ‘Insufficient tests’ message, has
January 13, 2012
Bacillus laterosporus was moved to genus Brevibacillus.
Bacillus apiarius was moved to genus Paenibacillus.
"Capsule" is no longer an identification criteria in Bacillus database.
New species added: Bacillus aeolius, B. alcalophilus, B. amyloliquefaciens, B. asahii, B. aquimaris, B. barbaricus, B.
bataviensis, B. benzoevorans, B. carboniphilus, B. decolorationis, B.drentensis.
New species added: Enterococus gilvus, E. palens, E. thailandicus.
New species added: Streptococcus cristatus, S. dentirousetti.
New species added: Enterovibrio nigricans, Salinivibrio siamensis, Vibrio aerogenes, Vibrio agarivorans, Vibrio
cyclitrophicus, Vibrio hepatarius, Vibrio inusitatus, Vibrio kanaloae, Vibrio pacinii, Vibrio pomeroyi, Vibrio porteresiae, Vibrio
rarus, Vibrio rotiferianus, Vibrio ruber, Vibrio sinaloensis.
February 07, 2012
Staphylococcus caseolyticus was moved to genus Macrococcus as Macrococcus caseolyticus
New species added: Staphylococcus equorum subsp. linens
Staphylococcus equorum changed to Staphylococcus equorum subsp. equorum
Staphylococcus and Streptococcus interface optimization
Biochemical changes for several species
New species added: Bacillus endophyticus, Bacillus farraginis, Bacillus fordii, Bacillus fortis, Bacillus flexus, Bacillus
fumarioli, Bacillus galactosidilyticus, Bacillus gelatini, Lysinibacillus fusiformis
Chryseomonas polytricha Holmes et al. 1986 is a later heterotypic synonym of Pseudomonas luteola Kodama et al. 1985.
February 22, 2012
Minor biochemical changes for some Staphylococcus species.
April 11, 2012
Bacillus insolitus was moved to genus Psychrobacillus as Psychrobacillus insolitus
Minor biochemical changes for several species
Strains of B. carotarum , B. capri, B. cobayae, B. musculi, B. maroccanus, and B. macroides was reclassified as Bacillus
simplex by Heyrman et al. 2005
Species added: Salimicrobium halophilum, Bacillus horti, Bacillus hwajinpoensis, Bacillus jeotgali, Bacillus krulwichiae,
An erroneous scripting line for xylose test was corrected. The line was responsible only for showing unmatching xylose test
so, the previous identifications were not afected.
Staphylococcus pulvereri Zakrzewska-Czerwinska et al. 1995 is a later synonym of Staphylococcus vitulinus.
Staphylococcus sciuri includes subspecies sciuri, rodentium & carnaticus
Minor biochemical changes for several species
Species added: Staphylococcus microti, Staphylococcus pasteuri, Staphylococcus succinus subsp. succinus,
Staphylococcus succinus subsp. casei,
Species added in genus Macrococcus: Macrococcus bovicus, Macrococcus brunensis, Macrococcus carouselicus,
Macrococcus equipercicus, Macrococcus hajekii, Macrococcus lamae
April 13, 2012
Minor update. Identification formula optimization - rounding id%. All databases changed version. Parameters for
'Contamination' & 'Wrong taxa' error messages were set to 90%. Minimum required tests number was set to 7.
May 10, 2012
Species added: Bacillus marisflavi, Bacillus methanolicus, Bacillus nealsonii, Viridibacillus neidei, Bacillus niacini, Bacillus
novalis, Bacillus soli & Bacillus vireti.
Enterobacter intermedius was transferred to genus Kluyvera as Kluyvera intermedia.
Enterobacter sakazaki was transferred to genus Cronobacter as Cronobacter sakazakii.
Enterobacter agglomerans was transferred to genus Pantoea as Pantoea agglomerans.
Erwinia nigrifluens, Erwinia quercina, Erwinia rubrifaciens and Erwinia salicis were transferred to genus Brenneria as
Brenneria nigrifluens, B. quercina, B rubrifaciens and B. salicis, respectively (Hauben et al. 1999)
Pectobacterium (Erwinia) chrysanthemi was transferred to genus Dickeya as Dickeya chrysanthemi (Samson et al. 2005)
Erwinia paradisiaca was transferred to genus Dickeya as Dickeya paradisiaca (Samson et al. 2005)
Erwinia carotovora was transferred to genus Pectobacterium as Pectobacterium carotovorum.
Erwinia ananas was transferred to genus Pantoea as Pantoea ananatis.
Erwinia stewartii was transferred to genus Pantoea as Pantoea stewartii.
Erwinia uredovora is a synonym of Erwinia ananas and was transferred to genus Pantoea as Pantoea ananatis.
Erwinia dissolvens was transferred to genus Enterobacter as Enterobacter dissolvens (Rosen 1922) Brenner et al. 1988
Erwinia cypripedii was transferred to genus Pantoea as Pantoea cypripedii
Biochemical changes for several species.
Species added: Buttiauxella brennerae, Buttiauxella ferragutiae, Buttiauxella gaviniae, Buttiauxella izardii, Buttiauxella
noackiae, Buttiauxella warmboldiae, Cedecea species 3, Cedecea species 5, Citrobacter braakii, Citrobacter farmeri,
Citrobacter gillenii, Citrobacter murliniae, Citrobacter rodentium, Citrobacter sedlakii, Citrobacter werkmanii, Citrobacter
youngae, Edwardsiella tarda biogroup 1, Enterobacter pyrinus, Brenneria alni, Dickeya paradisiaca, Pectobacterium
atrosepticum, Pectobacterium betavasculorum, Pectobacterium wasabiae, Erwinia aphidicola, Erwinia billingiae, Erwinia
pyrifoliae & Erwinia toletana.
July 02, 2012
Escherichia blattae Burgess et al. 1973 was transferred to genus Shimwellia as Shimwellia blattae Priest and Barker 2010.
Obesumbacterium proteus biogroup 2 was transferred to genus Shimwellia as Shimwellia pseudoproteus.
Hafnia alvei biogroup 1 and Obesumbacterium proteus biogroup 1 may be considered synonyms.
Klebsiella planticola and Klebsiella terrigena were transferred to genus Raoultella as Raoultella planticola and Raoultella
Species added: Shimwellia pseudoproteus (Obesumbacterium proteus biogroup 2), Hafnia alvei biogroup 1,
(Obesumbacterium proteus biogroup 1), Raoultella ornithinolytica, Kluyvera georgiana, Salmonella enterica subsp. enterica
serovar Choleraesuis, Salmonella enterica subsp. enterica serovar Gallinarum, Salmonella enterica subsp. enterica serovar
Paratyphi A, Salmonella enterica subsp. enterica serovar Pullorum, Salmonella enterica subsp. enterica serovar Typhi,
Morganella morganii subsp. sibonii & Morganella morganii biogroup 1.
Species added: Rummeliibacillus pycnus, Bacillus oleronius, Bacillus shackletonii, Solibacillus silvestris, Bacillus siralis &
September 08, 2012
Elevation of ABIS online to version 8, featuring the Campylobacter database.
What is new in ABIS 8:
Campylobacter & Arcobacter biochemical identification (for the list of identifiable species see ABIS Encyclopedia).
Pantoea stewartii has been changed to P. stewartii subsp. stewartii as a consequence of Pantoea stewartii subsp.
indologenes description by Mergaert et al. 1993.
Xenorhabdus luminescens Thomas and Poinar 1979 has been transferred to genus Photorhabdus as Photorhabdus
luminescens by Boemare 1993.
Proteus myxofaciens Cosenza and Podgwaite 1966 has been transferred to genus Cosenzaea as Cosenzaea myxofaciens
(Cosenza and Podgwaite 1966) Giammanco et al. 2011.
Shigella boydii, S. dysenteriae & S. flexneri are now treated as individual taxons. Biochemical tests have been revised.
Important biochemical changes for genus Xenorhabdus.
Species added: Pantoea stewartii subsp. indologenes, Photorhabdus asymbiotica subsp. asymbiotica, Photorhabdus
asymbiotica subsp. australis, Photorhabdus luminescens subsp. akhurstii, Photorhabdus luminescens subsp. laumondii,
Photorhabdus temperata, Providencia burhodogranariea, Providencia sneebia, Serratia nematodiphila, Serratia ureilytica,
Tatumella citrea, Tatumella punctata, Tatumella terrea, Tatumella morbirosei, Trabulsiella odontotermitis, Xenorhabdus
japonica, Yersinia similis, Enteric Group 58, Enteric Group 60, Enteric Group 68 & Enteric Group 69.
Molecular 16S RNA database for Enterobacteriaceae is now available.
Species added: Bacillus sporothermodurans, Bacillus subterraneus, Bacillus thermoamylovorans, Bacillus vietnamensis,
Bacillus acidiceler & Bacillus acidiproducens.
Minor biochemical changes for several other Bacillus species
November 30, 2012
Android market - ABIS can now be installed on mobile devices. Search 'Google Play Store' from your Android OS phone or
Graphical optimizations for increasing loading speed.
Introduced a direct link to species description in "Details" page. By clicking on magnifying glass from the vicinity of identified
species, details about taxonomy, ecology, pathogenicity, biochemical & morpho-cultural characters are revealed.
Implemented a warning button in 'Results' page for highlighting supplementary species-specific morpho-biochemical
characters that may be useful for identification.
New tests added: alkaline phosphatase, growth with triphenyl-tetrazolium chloride, growth with cefoperazone (64 mg/L),
growth on MacConkey agar.
Species added: Arcobacter cibarius, Arcobacter halophilus, Arcobacter marinus, Arcobacter mytili & Arcobacter thereius.
New tests added: melezitose, melibiose, raffinose & rhamnose acidification.
Species added: Bacillus aidingensis, Bacillus canaveralius, Bacillus cibi, Bacillus horneckiae, Bacillus isabeliae, Bacillus
korlensis, Lysinibacillus massiliensis, Bacillus muralis, Bacillus neizhouensis, Bacillus oshimensis, Bacillus polygoni,
Bacillus ruris, Bacillus safensis, Bacillus siamensis, Bacillus tequilensis & Bacillus trypoxylicola.
December 20, 2012
Reorganization of Pasteurellaceae biochemical tests menu.
Antibiogram interepreter upgraded with EUCAST breakpoints values.
Species added: Campylobacter avium, Campylobacter canadensis, Campylobacter cuniculorum, Campylobacter
insulaenigrae, Campylobacter subantarcticus & Campylobacter volucris.
Species added: Paenibacillus agarexedens, Paenibacillus agaridevorans, Paenibacillus amylolyticus& Paenibacillus
Species added: Enterovibrio calviensis, Photobacterium rosenbergii, Vibrio areninigrae, Vibrio chagasii, Vibrio comitans &
February 04, 2013
New genus added: Aeromonas
For a more easy and reliable identification, and considering the ecological niche, biochemical tests, pathogenicity and
cultural characters, Genus Aeromonas was included in Vibrio database.
New identification test added: “resistance to O/129 vibriostatic agent”.
Species added: Vibrio rhizosphaerae, Vibrio rumoiensis, Vibrio sagamiensis & Vibrio superstes
Minor biochemical changes for Paenibacillus apiarius & Paenibacillus alvei.
Species added: Paenibacillus assamensis , Paenibacillus azoreducens, Paenibacillus aestuarii, Paenibacillus
barcinonensis, Paenibacillus borealis , Paenibacillus brasilensis, Paenibacillus castaneae, Paenibacillus chibensis ,
Paenibacillus illinoisensis, Paenibacillus cellulositrophicus & Paenibacillus cineris.
March 26, 2013
Printing optimisation: when printing out the results, the fonts are enlarged for a better visibility on paper. The printer icon is
located in "Biochemical details' page. For best contrast, we recommend the printer to be set on 'black & white' finishing.
Introducing 'Strain name / code' function. Strain name or code will appear both on "Biochemical details' page and
According to Genersch et al. 2006, P. larvae subsp. pulvifaciens and P. larvae subsp. larvae are reclassified as a single
species: Paenibacillus larvae. ABIS database has been updated with taxonomic and biochemical changes and P. larvae
subsp pulvifaciens was removed from database.
Paenibacillus macquariensis - contains two subspecies: P. macquariensis subsp. defensor and P. macquariensis subsp.
macquariensis. Important biochemical changes have been applied.
Species added: Paenibacillus chinjuensis, Paenibacillus chondroitinus, P. alginolyticus, Paenibacillus cookii, Paenibacillus
contaminans, Paenibacillus curdlanolyticus, Paenibacillus glucanolyticus, Paenibacillus graminis, Paenibacillus jamilae,
Paenibacillus konsidensis, Paenibacillus koreensis, Paenibacillus kribbensis, Paenibacillus terrae, Paenibacillus lactis,
Paenibacillus lautus, Paenibacillus peoriae, Paenibacillus massiliensis, Paenibacillus sanguinis, Paenibacillus timonensis,
Paenibacillus mendelii, Paenibacillus montaniterrae, Paenibacillus siamensis, Paenibacillus septentrionalis, Paenibacillus
nanensis, Paenibacillus thailandensis, Paenibacillus naphthalenovorans, Paenibacillus nematophilus, Paenibacillus
odorifer & Paenibacillus pabuli.
May 15, 2013
We are proud to announce new ABIS services:
The most important is the “Salmonella serovars identification”. Based on updated Kauffman-White scheme, a 2570
Salmonella serovars database is now available. It can be accessed from the “Log in” page.
Second service: we have added a "Software limitations" page where all identifiable taxons are listed and biochemical tests
are evaluated. The service evaluates the biochemical tests, providing information about discrimination power, variability and
reliability. Reviewing these performance indicators may be useful for selecting the best tests or minimal requirements for
identification. It can be accessed from the biochemical identification main page.
Third: the molecular identification has now the A+T / G+C ratio calculation option.
Others: the 16S rRNA gene identification engine has been optimized for the increasing of computing speed.
Minor bichemical changes for Brevibacillus brevis, Paenibacillus thiaminolyticus and Paenibacillus amylolyticus.
Species added: Paenibacillus validus, Paenibacillus panacisoli, Paenibacillus pectinilyticus, Paenibacillus prosopidis,
Paenibacillus provencensis, Paenibacillus urinalis, Paenibacillus residui, Paenibacillus sputi, Paenibacillus turicensis,
Paenibacillus wynnii, Brevibacillus agri, Brevibacillus centrosporus & Brevibacillus parabrevis.
July 11, 2013
Clostridium identification database is now open for public use. Species added: C. acetobutylicum, C. algidicarnis, C.
algidixylanolyticum, C. aminovalericum, C. baratii, C. botulinum, C. butyricum, C. chauvoei, C. novyi, C. perfringens, C.
septicum, C. tetani, C. sporogenes, C. sordellii, C. histolyticum, C. difficile, C. colinum, C. haemolyticum & C. cadaveris.
Minor bichemical correction for Haemophilus haemoglobinophilus & Haemophilus ducreyi: the requirement for x-factor
(hemin) was set “positive”.
August 28, 2013
The Kauffman-White identification scheme for Salmonella serovars has been optimized.
New identification criteria added: milk reaction (curd production).
Species added: Blautia coccoides,Clostridium argentinense, C. aurantibutyricum, C. beijerinckii, C. bifermentans, C.
bowmanii, C. caminithermale, C. caenicola, C. carnis, C. celatum, C. celerecrescens, C. cellobioparum, C. cellulolyticum, C.
cellulosi, C. cellulofermentans, C. clostridioforme, C. cochlearium, C. cocleatum, C. colicanis, C. disporicum, C.
estertheticum, C. fallax & C. felsineum.
October 26, 2013
Tests changes: "Denitrification" was replaced with "Nitrates reduction". "Number of flagella" was replaced with "Motility".
Biochemical tests have been revised accordingly.
Tests added: "growth on MacConkey agar", "Indole production, "H2S production", "Lysine decarboxylase", "Ornithine
decarboxylase" and "Alkaline phosphatase".
7 species added: Riemerella (Moraxella) anatipestifer, Riemerella columbina, Moraxella atlantae, Moraxella bovis,
Moraxella boevrei, Moraxella bovoculi & Moraxella canis.
25 species added: Cellulosilyticum (Clostridium) lentocellum, Cellulosilyticum ruminicola, Flavonifractor plautii, Clostridium
ghonii, C. glycolicum, C. herbivorans, C. hiranonis, C. hylemonae, C. indolis, C. innocuum, C. intestinale, C. isatidis, C.
lacusfryxellense, C. limosum, C. lituseburense, C. malenominatum, C. mangenotii, C. nexile, C. oceanicum, C. oroticum, C.
papyrosolvens, C. paraputrificum, C. pascui, C. pasteurianum & C. propionicum.
December 12, 2013
Several biochemical tests were updated in Moraxella bovis.
13 species added: Moraxella caprae, M. lacunata, M. equi, M. caviae, M. cuniculi, M. lincolnii, M. nonliquefaciens, M.
osloensis, M. ovis, M. pluranimalium, M. porci, Oligella ureolytica, Oligella urethralis.
Several biochemical tests were updated in Clostridium clostridioforme.
16 species added:Clostridium psychrophilum, C. puniceum, C. putrefaciens, C. ramosum, C. rectum, C. saccharobutylicum,
C. roseum, C. saccharolyticum, C. saccharoperbutylacetonicum, C. sardiniense, C. sartagoforme, C. scatologenes, C.
scindens, C. sphenoides, C. spiriforme, C. sporosphaeroides.
January 07, 2014
Several biochemical tests were updated in Moraxella bovis and M. bovoculi.
10 species added: Pseudomonas fragi, P. lemoignei, Acinetobacter baumannii, A. calcoaceticus, A. haemolyticus, A. junii,
A. johnsonii, A. lwoffii, A. radioresistens, A. venetianus.
Several biochemical tests were updated in Clostridium butyricum and Clostridium acetobutylicum.
6 species added: Clostridium sticklandii, C. subterminale, C. symbiosum, C. tertium, C. tetanomorphum, C. tyrobutyricum
April 29, 2014
Regnum Prokaryotae is proud to announce the 'ABIS online' upgrade to version 10 which adds another 2 genera:
Helicobacter and Lactobacillus by unlocking Lactobacillus database for public use, and including genus Helicobacter in
Campylobacter identification database.
July 01, 2014
The search engine for somatic and flagellar antigens in Kauffman-White scheme (Salmonella) was improved.
Molecular identification (not available on Android mobile application)
Optimization of ARN 16S gene identification engine, speed being significantly faster now.
Bacillaceae molecular database, including 396 species in 52 genera, is now open for public use.
Family Enterobacteriaceae: revision of Salmonella nomenclature.
Genus Lactobacillus: 14 species added: Lactobacillus helveticus,Lactobacillus hilgardii, Lactobacillus homohiochii,
Lactobacillus hordei, Lactobacillus ingluviei, Lactobacillus intestinalis, Lactobacillus kalixensis, Lactobacillus
kefiranofaciens subsp. kefiranofaciens, Lactobacillus kefiranofaciens subsp. kefirgranum, Lactobacillus kitasatonis,
Lactobacillus kisonensis, Lactobacillus otakiensis, Lactobacillus rapi & Lactobacillus sunkii.
Genus Helicobacter: Gelatin, Casein & Starch hydrolysis tests were removed due to their low significance for identification.
Gamma-Glutamyl-Transferase test was added.
3 species added: Helicobacter hepaticus, Helicobacter ganmani & Helicobacter cholecystus.
August 08, 2014
ABIS got the "target" mode; a new function that allows the monitoring of a specific taxon during the identification process.
"Results" and "Biochemical details" pages display its distance from the top ranked taxa, the matching percent of
biochemical tests and their suitability.
16 species were added to Lactobacillus database: Lactobacillus kunkeei, L. mali, L. manihotivorans, L. farciminis, L.
malefermentans, L. alimentarius, L. mindensis, L. mucosae, L. nagelii, L. namurensis, L. nantensis, L. nasuensis, L.
nodensis, L. odoratitofui, L. oeni & L. oris.
September 09, 2014
Announcing the end support for "ABIS online" Android application 1118532 by October 01.
A newer version is available in Google Play Store at http://play.google.com/store/apps/details?id=net.tgw1916
Changes from previous version: zoom option added (double tap for zoom in/out), hardware "back" button is no longer
returning to home page, refresh button added (cache clearing is no longer required for updates to be effective).
Requirements: Android 4.4 or lower; all devices are supported.
2 species were added to Campylobacter/Helicobacter database: Helicobacter muridarum & Helicobacter mustelae.
13 species were added to Lactobacillus database: Lactobacillus ozensis, L. panis, L. pantheris, L. paracollinoides, L.
parakefiri, L. paralimentarius, L. parafarraginis, L. parabuchneri, L. ferintoshensis, L. paucivorans, L. pobuzihi, L.
rhamnosus, L. rossiae & L. rennini.
November 15, 2014
Added transparent graphics for navigation buttons. Revision of A+T/C+G page.
a) 5 species were added to Helicobacter database: Helicobacter pametensis, H. rodentium, H. suis, H. typhlonius &
Helicobacter sp. strain CLO-3.
b) Acinetobacter rudis was added to Non-fermenters database. Revision of Acinetobacter haemolyticus, A. venetianus, A.
beijerinckii & A. gyllenbergii.
c) 16 species were added to Lactobacillus database: Lactobacillus saerimneri, L. sakei, L. saniviri, L. senioris, L.
secaliphilus, L. suntoryeus, L. senmaizukei, L. similis, L. sucicola, L. taiwanensis, L. ultunensis, L. vaginalis, L.
versmoldensis, L. zymae, L. xiangfangensis & L. vini.
December 30, 2014
The opening of Listeria database for public use, the finalization of Campylobacter & Helicobacter database and announcing
for 2015 the release of Arcanobacterium-Corynebacterium & Lactococcus identification databases.
5 species were added to Helicobacter database: Helicobacter baculiformis, H. cynogastricus, H. equorum, H. heilmannii &
11 species & subspecies were included in Listeria database: Listeria monocytogenes, L. grayi subsp. grayi, L. grayi subsp.
murrayi, L. innocua , L. ivanovii , L. seeligeri, L. welshimeri, L. marthii, L. rocourtiae, Brochotrix campestris & Brochotrix
February 04, 2015
Three Erysipelothrix species were added to Listeria-Erysipelothrix database: Erysipelothrix inopinata, E. rhusiopathiae & E.
Nine Lactococcus species & subspecies were included in Streptococcus identification database: Lactococcus lactis subsp.
cremoris, L. lactis subsp. hordniae, L. lactis subsp. lactis, L. lactis subsp. tructae, L. garvieae, L. piscium, L. plantarum, L.
raffinolactis & L. chungangensis.
July 29, 2015
1. Adding Corynebacterium identification database;
2. Introduction of Lancefield grouping for streptococci and related genera (enterococci, lactococci et al.);
3. Reorganization of Encyclopedia's index for an easier access;
4. Complete revision of the entire Streptococcus genus, 10 more biochemical tests (fermentation of: dulcitol, galactose,
glycerol, glycogen, inositol, maltose, melibiose, melezitose, salicin, and starch), and 13 new Streptococcus species added
to identification database: S. dentapri, S. devriesei, S. intermedius, S. lactarius, S. porci, S. porcorum, S. rubneri, S.
rupicaprae, S. sinensis, S. tigurinus, S. troglodytae, S. troglodytidis & S. ursoris.
- Streptococcus pleomorphus Barnes et al. 1977 was moved to genus Faecalicoccus as Faecalicoccus pleomorphus De
Maesschalck et al. 2014.
- Streptococcus bovis is now included in S. equinus species.
- Streptococcus mitior was removed as is no longer considered a valid name.
September 24, 2015
The "Target" mode; a new function that allows the monitoring of a specific taxon during the identification process has been
revised and upgraded. The recommended tests for the identification and the unsuitable tests (weak, delayed, variable) are
listed for the selected taxon.
"Results" and "Biochemical details" pages, displaying the distance from the top ranked taxa, the matching percent of
biochemical tests and their suitability, remain unchanged.
The "Tests power" option evaluates the biochemical tests, providing information about discrimination power, variability and
reliability. Reviewing these performance indicators may be useful for selecting the best tests or minimal requirement for
20 species were added to Corynebacterium database and ABIS Encyclopedia: C. appendicis, C. aquilae, C. canis,
C. confusum, C. casei, C. coyleae, C. durum, C. falsenii, C. freneyi, C. imitans, C. lipophiloflavum, C. mooreparkense, C.
mucifaciens, C. nigricans, C. riegelii, C. simulans, C. singulare, C. sundsvallense, C. thomssenii.
November 27, 2015
End of November brings to ABIS ten new streptococci and seven corynebacteria. Most Streptococci are oral isolates.
Species added: Streptococcus cuniculi, S. dentasini, S. dentisani, S. hongkongensis, S. loxodontisalivarius, S. moroccensis,
S.oriloxodontae, S. orisasini, S. rifensis, and S. saliviloxodontae.
Biochemical tests revison of Streptococcus merionis, S. ovis, S. oralis, S. gallinaceus, S. criceti, S. pseudopneumoniae, and
H2S production and indole production were removed as they have little significance for identification. They were replaced by
ribose fermentation and alpha-glucosidase activity tests.
Species added: Corynebacterium caspium, C. ciconiae, C. efficiens, C. frankenforstense, C.breiburgense, C. glaucum, C.
Listeria, Campylobacter, and Helicobacter 16S RNA databases added to molecular identification.
January 16, 2016
"Bacterial identification" (ABIS online) application runs in landscape mode only.
"Results" page graphics were optimized for mobile browsers.
The last app version in Google Play is now 12.3 and is optimized for android version 5.
The minimal number of required test for identification was raised from seven to eight.
The default identification mode is now set to "Auto". This mode will let the computer decide which mode to use, "Normal" or
"Forced". These modes can still be manually set if the user consider to be necesary.
Eight Aerococcus species added in Streptococcus identification database: Aerococcus christensenii, A. sanguinicola, A.
suis, A. urinae, A. urinaeequi, A. urinaehominis, A. vaginalis, & A. viridans.
Three species added to genus Corynebacterium: C. humireducens, C. mustelae & C. mastitidis.
March 16, 2016
Family Aerococcaceae. Eleven species included in five genera (Dolosicoccus, Eremococcus, Facklamia, Globicatella and
Ignavigranum) were added in Streptococcus identification database:
Dolosicoccus paucivorans, Eremococcus coleocola, Facklamia hominis, F. ignava, F. languida, F. miroungae, F. sourekii, F.
tabacinasalis, Globicatella sanguinis, G. sulfidifaciens & Ignavigranum ruoffiae.
Genus Corynebacterium. Ten species added: Corynebacterium phocae, C. pilbarense, C. pyruviciproducens, C. resistens,
C. sphenisci and C. spheniscorum, C. sputi, C. suicordis, C. tuberculostearicum & C. tuscaniense.
July 26, 2016
"Target" function optimization: the user is better informed now, receiving the best tests for identification together with their
values (positive/negative) for the targeted taxon. Identification criteria changes: D- & L- lactic acid tests were removed from
Staphylococcus database and oxidative & fermentative metabolism tests were removed from Corynebacterium database.
14 Corynebacterium species added: C. accolens, C. auriscanis, C. atypicum, C. camporealensis, C. doosanense, C.
epidermidicanis, C. felinum, C. kroppenstedtii, C. lubricantis, C. marinum, C. maris, C. massiliense, C. timonense & C.
Introducing salinicocci, a moderately halophylic group of microoorganisms, classified in Genus Salinicoccus, Family
Staphylococcaceae; 11 species added: S. albus, S. carnicancri, S. halodurans, S hispanicus, S. iranensis, S. jeotgali, S.
kunmingensis, S qingdaonensis, S. roseus, S. sesuvii & S. siamensis.
September 10, 2016
Antibiotic susceptibility test: the breakpoint tables for interpretation of zone diameters have been updated by CLSI M100S
26th Edition (2016) and EUCAST v 6.0 (2016) standards.
Eight new Staphylococcus species were added to identification database: S. agnetis, S. argenteus, S. devriesei, S. jettensis,
S. massiliensis, S. pettenkoferi, S. rostri & S. schweitzeri.
December 25, 2016
Neisseria identification database including 34 species is now open for public use.
By adding another 6 coryneforms, the Corynebacterium database now exceeds 100 species.
The "Limits" menu was reorganized in "Analytics" menu and upgraded by a new function: "Similarity" that calculates the
closeness between a specified taxon and its neighbors in the same taxonomic group (family or genus) based on their
morphological and biochemical properties.
The "Target" function: a bug that was preventing the dropbox to list the taxa in ascending order, was removed.
Neisseria animalis, N. animaloris, N. bacilliformis, N. canis, N. cinerea, N. dentiae, N. elongata subsp. elongata, N. elongata
subsp. glycolytica, N. elongata subsp. nitroreducens, N. flavescens, N. iguanae, N. gonorrhoeae, N. lactamica, N. macacae,
N. meningitidis, N. mucosa, N. polysaccharea, N. sicca, N. flava, N. perflava, N. subflava, N. shayeganii, N. wadsworthii, N.
weaveri, N. zoodegmatis, Kingella denitrificans, K. kingae, K. oralis, K. potus, Alysiella crassa, Alysiella filiformis, Bergeriella
denitrificans, Conchiformibius kuhniae, Conchiformibius steedae, and Simonsiella muelleri.
Corynebacterium flavescens, Curtobacterium flaccumfaciens, Rhodococcus equi, Turicella otitidis, Pseudoglutamicibacter
cumminsii, and Pseudoglutamicibacter albus.
March 25, 2017
1. Changes in Bacterial Identification Databases:
- Campylobacter jejuni subsp. jejuni was divided in 3 biotypes.
- Thirteen Corynebacterium-like species from genera Arthrobacter, Brevibacterium, and Pseudoarthrobacter were
added: Arthrobacter gandavensis, A. luteolus, A. nasiphocae, A. sanguinis, Pseudarthrobacter equi, P. scleromae,
Brevibacterium avium, B. epidermidis, B. iodinum, B. linens, B. marinum, B. massiliense, and B. mcbrellneri.
2. Antibiogram interpreter changes:
- Added CLSI disk diffusion criteria for antimicrobial susceptibility testing of Neisseria. Please note that EUCAST
committee has not yet defined the disk diffusion criteria for antimicrobial susceptibility testing of Neisseria. Use the
MIC breakpoints or the CLSI standard instead.
- Removed Vancomycin test from CLSI and Custom Staphylococcus databases.
- Revision of Oxacillin test in Staphylococcus CLSI database and added Cefoxitin as surrogate for Oxacillin when
testing S. aureus, S. lugdunensis and coagulase-negative staphylococci.
- A CLSI Enterococcus database malfunction due to an error in input panel, was corrected.
June 06, 2017
1. Antibiogram interpreter changes:
2. Complete revision of ABIS Encyclopedia.
- A duplicate input field in EUCAST-Enterobacteriaceae database was corrected.
3. Changes in bacterial identification databases:
- Reorganisation of biochemical databases; tests are now listed in the same order with the input fields.
- Correction of Aeromonas veronii subsp. veronii "O129" test.
- Correction of Clostridium "neutral red" test.
- Correction of Vibrionaceae "Details" page error not showing the database version.
- Nine species added to Neisseria and Corynebacterium databases: Eikenella corrodens, Crenobacter luteus,
Morococcus cerebrosus, Brevibacterium casei, Brevibacterium oceani, Brevibacterium paucivorans, and
August 08, 2017
Optimization of the "Target" mode, a function that allows the monitoring of a specific taxon during the identification process:
after selecting the targeted taxon, the user is returned to "Input" page where test values
(positive/negative/variable/unavailable) for the targeted taxon are listed on the left side.
Because there are taxons incompletely described in the literature, the identification databases may contain gaps. This lack
of information may alter the identification results. To achieve the best identification, the input of the "unavailable" tests is
blocked, so the user can only enter tests corresponding to a solid, well defined information in the database.
Utility function. The Input tests page will show on left side the global utility of the tests regarding the selected database,
ranking *** high ** medium and * low. This will help the user to select the best performing tests and avoid consuming the
lab resources with weak tests. See Analytics page for details about calculating the power of the tests.
New species added:
Dermabacter hominis - isolated from human blood cultures, abscesses, wounds, skin lesions, eyes.
Dermabacter vaginalis - isolated from human vaginal fluid.
Uruburuella suis - isolated from lesions of pneumonia and pericarditis in pigs.
Uruburuella testudinis - isolated from the pharynx, lung, liver, spleen, kidney and eye of tortoises of the genus Testudo.
- Melibiose fermentation test was added to Staphylococcus database.
- Special characters used in some bacteria names from Pasteurella and Campylobacter databases were blocking the taxon
to be selected in target mode. They were removed.
- A bug that was limiting the number of discriminatory tests sugested in "Details" page, was corrected.
- Minor biochemical adjustments to Gemella morbillorum, Streptococcus intermedius and Staphylococcus saccharolyticus.
- The name of the taxon "Providentia stuartii" has been replaced with "Providencia stuartii".
- Added a message in "Details" page when no tests were used.
- Ads were removed from "Results" page